Identification of EST-SSRs in Taxus cuspidata based on high-throughput sequencing / 中国中药杂志
China Journal of Chinese Materia Medica
;
(24): 3728-3733, 2012.
Article
in Chinese
| WPRIM
| ID: wpr-346849
ABSTRACT
<p><b>OBJECTIVE</b>Taxus species are highly valued for the production of taxol. Based on high-throughput sequenceing, EST-SSRs were explored and studied in the transcriptome of Taxus cuspidata.</p><p><b>METHOD</b>T cuspidata leaf cDNA was extracted and sequenced by 454 GS FLX Titanium. High-quality sequences were assembled using Newbler Assembler Software, which produced unique sequences. SSRs motif was explored using simple sequence repeat identification tool (Perl Script). Primers were designed using PRIMER3.</p><p><b>RESULT</b>A total of 81 148 high-quality reads from the needles of T. cuspidata were produced using the Roche GS FLX Titanium system. A total of 20 557 unique sequences were obtained. There were 753 simple sequence repeat motifs identified. Primers of PCR were obtained for 519 EST-SSRs, randomly selected cloning sequencing revealed that 87.5% of ESTs were the same as the results of Sanger sequencing.</p><p><b>CONCLUSION</b>The results provide the first EST-SSRs collection in Taxus and are essential for future efforts of gene discovery, functional genomics, and genome annotation in related species.</p>
Full text:
Available
Index:
WPRIM (Western Pacific)
Main subject:
DNA Primers
/
Gene Expression Regulation, Plant
/
Microsatellite Repeats
/
Expressed Sequence Tags
/
Taxus
/
Gene Expression Profiling
/
High-Throughput Nucleotide Sequencing
/
Transcriptome
/
Genetics
/
Methods
Type of study:
Diagnostic study
Language:
Chinese
Journal:
China Journal of Chinese Materia Medica
Year:
2012
Type:
Article
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